diff gene_fraction.xml @ 0:0fd352f62446 draft default tip

planemo upload for repository https://github.com/ChrisD11/Duplicon commit 3ee0594c692faac542ffa58f4339d79b9b8aefbd-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/gene_fraction.xml	Sun Feb 21 06:05:24 2016 -0500
@@ -0,0 +1,20 @@
+<tool id="gene_fraction" name="Gene Fraction" version="0.1.0">
+  <description>for single-end or paired-end data</description>
+  <command>$__tool_directory__/csa -amr_fp $amr_fp -sam_fp $sam_fp -t $threshold -min $min -max $max -skip $skip -samples $samples -out_fp $out_fp</command>
+  <inputs>
+    <param format="fasta" name="amr_fp" type="data" label="Input fasta file"/>
+    <param format="sam" name ="sam_fp" type="data" label="Input SAM file"/>
+    <param name="threshold" size="3" type="integer" min="0" max="100" value="1" label="Threshold"/>
+    <param name="min" size="3" type="integer" min="1" max="100" value="1" label="Minimum level"/>
+    <param name="max" size="3" type="integer" min="1" max="100" value="1" label="Maximum level"/>
+    <param name="skip" size="3" type="integer" min="1" max="100" value="1" label="Skip pattern"/>
+    <param name="samples" size="3" type="integer" min="1" max="100" value="1" label="Samples per level"/>
+  </inputs>
+  <outputs>
+    <data format="tabular" name="out_fp" />
+  </outputs>
+  <help>
+This tool calculates the amount of genes that are covered by atleast one read.
+  </help>
+
+</tool>